AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013847

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013847 MtrunA17_Chr3g0099331 96.833 221 6 1 1 221 1 220 2.79e-162 449
MsaG013847 MtrunA17_Chr4g0057971 59.174 218 87 1 4 219 6 223 2.23e-94 277
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013847 AT5G63280.1 61.458 192 72 1 30 219 26 217 1.16e-90 268
MsaG013847 AT5G40710.1 61.749 183 70 0 44 226 44 226 3.20e-87 259
MsaG013847 AT5G40710.2 64.706 153 54 0 44 196 44 196 5.24e-75 227

Find 41 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACTCCAATTTACTTAATT+TGG 0.122652 3:-62179160 MsaT013847.1:intron
AATGTTATTGTTCAGAATTC+TGG 0.162180 3:-62179578 MsaT013847.1:intron
AAGAACAATGAATAAGATTT+TGG 0.184207 3:-62180523 None:intergenic
TCATACCAAATTAAGTAAAT+TGG 0.245660 3:+62179155 None:intergenic
CCTGCAGCGAGCCGGCTTCA+TGG 0.327309 3:-62177966 MsaT013847.1:intron
TGTGATCATGAAATTAATTC+CGG 0.335511 3:-62178159 MsaT013847.1:CDS
GCTGCAGGACCCTCGTTAAC+TGG 0.349350 3:+62177981 None:intergenic
TCGTGTTCTTGTTGCTTACA+AGG 0.379404 3:-62180482 MsaT013847.1:CDS
TCAAATTACCCTGCGTCCTC+TGG 0.385032 3:+62177796 None:intergenic
TTATTTCTTGCTGCAGCAGC+AGG 0.412858 3:+62178114 None:intergenic
TCTCTATATATATCATTGTC+AGG 0.427562 3:+62179288 None:intergenic
GTGATCATGAAATTAATTCC+GGG 0.457434 3:-62178158 MsaT013847.1:CDS
ATTGTTCAGAATTCTGGATC+AGG 0.460914 3:-62179572 MsaT013847.1:intron
TGCGATGCTCACAGCTGCAT+TGG 0.469029 3:-62177836 MsaT013847.1:CDS
CCATGAAGCCGGCTCGCTGC+AGG 0.478890 3:+62177966 None:intergenic
GCAGTATTTGACGACATTTG+TGG 0.483411 3:-62179352 MsaT013847.1:intron
CCAGAAAGAAAGCCGGTGCT+TGG 0.485087 3:-62178205 MsaT013847.1:intron
GAGAAAGAAGTAGAATAGCT+TGG 0.485109 3:-62179516 MsaT013847.1:CDS
CTCATATAGATATAAATGAA+TGG 0.514723 3:-62179248 MsaT013847.1:CDS
CAATGATATATATAGAGATC+AGG 0.516644 3:-62179283 MsaT013847.1:CDS
ACCCTGCGTCCTCTGGAGAA+AGG 0.523798 3:+62177803 None:intergenic
ACGAGGGTCCTGCAGCGAGC+CGG 0.531828 3:-62177974 MsaT013847.1:CDS
GCTCACAGCTGCATTGGACG+TGG 0.537666 3:-62177830 MsaT013847.1:CDS
TGGAAAACAACTCTCGGCTA+TGG 0.540767 3:+62178001 None:intergenic
ATAATATCTCAAGAAGGTGC+AGG 0.547108 3:-62179317 MsaT013847.1:CDS
GCCTTTCTCCAGAGGACGCA+GGG 0.563120 3:-62177804 MsaT013847.1:intron
CACATACATCTGCCAAGCAC+CGG 0.586640 3:+62178193 None:intergenic
CTCTATATATATCATTGTCA+GGG 0.590660 3:+62179289 None:intergenic
ATATTGAAATACCATGAAGC+CGG 0.593494 3:+62177955 None:intergenic
TTGCAGCATCTGAATCTACA+TGG 0.597085 3:+62179995 None:intergenic
CGTGGAAAGCCTTTCTCCAG+AGG 0.599380 3:-62177812 MsaT013847.1:CDS
CGGTGCTTGGCAGATGTATG+TGG 0.602355 3:-62178192 MsaT013847.1:CDS
ATGTAGATTCAGATGCTGCA+AGG 0.607887 3:-62179993 MsaT013847.1:intron
AGCCTTTCTCCAGAGGACGC+AGG 0.608333 3:-62177805 MsaT013847.1:CDS
GTTAACTGGAAAACAACTCT+CGG 0.620815 3:+62177995 None:intergenic
AGCTTGGAAGATCGTTCAAG+AGG 0.626181 3:-62179500 MsaT013847.1:intron
AAGAAATAAGCATATATGTG+AGG 0.634147 3:-62178100 MsaT013847.1:intron
GCTGAATCCAGAAAGAAAGC+CGG 0.646951 3:-62178212 MsaT013847.1:intron
GATATAAATGAATGGCAGTG+TGG 0.647971 3:-62179240 MsaT013847.1:CDS
CTTACATCATCATCAGTGTG+TGG 0.677365 3:+62180447 None:intergenic
ATTCTGGATCAGGAGCAGAG+TGG 0.757422 3:-62179562 MsaT013847.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 62177458 62180538 62177458 ID=MsaG013847
Chr3 mRNA 62177458 62180538 62177458 ID=MsaT013847.1;Parent=MsaG013847
Chr3 exon 62177458 62177487 62177458 ID=MsaT013847.1.exon8;Parent=MsaT013847.1
Chr3 CDS 62177458 62177487 62177458 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Chr3 exon 62177805 62177878 62177805 ID=MsaT013847.1.exon7;Parent=MsaT013847.1
Chr3 CDS 62177805 62177878 62177805 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Chr3 exon 62177967 62178024 62177967 ID=MsaT013847.1.exon6;Parent=MsaT013847.1
Chr3 CDS 62177967 62178024 62177967 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Chr3 exon 62178101 62178223 62178101 ID=MsaT013847.1.exon5;Parent=MsaT013847.1
Chr3 CDS 62178101 62178223 62178101 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Chr3 exon 62179161 62179370 62179161 ID=MsaT013847.1.exon4;Parent=MsaT013847.1
Chr3 CDS 62179161 62179370 62179161 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Chr3 exon 62179501 62179585 62179501 ID=MsaT013847.1.exon3;Parent=MsaT013847.1
Chr3 CDS 62179501 62179585 62179501 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Chr3 exon 62179994 62180019 62179994 ID=MsaT013847.1.exon2;Parent=MsaT013847.1
Chr3 CDS 62179994 62180019 62179994 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Chr3 exon 62180452 62180538 62180452 ID=MsaT013847.1.exon1;Parent=MsaT013847.1
Chr3 CDS 62180452 62180538 62180452 ID=cds.MsaT013847.1;Parent=MsaT013847.1
Gene Sequence

>MsaT013847.1

ATGAATAAGATTTTGGTTTGGTTTCAACGATTTGTCGTGTTCTTGTTGCTTACAAGGATTTCTTCACTTCCACACACTGATGATGATGGCCATGTAGATTCAGATGCTGCAAGAATTCTGGATCAGGAGCAGAGTGGCGATCATCAAATACATTGCTCTAGAGAAAGAAGTAGAATAGCTTGGAAGATCGTTCAAGAGTATTTGACGACATTTGTGGAGAAAGAAAAATATAATATCTCAAGAAGGTGCAGGCTTCACCCTGACAATGATATATATAGAGATCAGGAACAACATAAATCTCATATAGATATAAATGAATGGCAGTGTGGATACTGTAAGAAAACTTTCTACGAAGAGAAACATCTTGATCAGCATTTTGACAACAGACACTCCAATTTACTTAATTTGAAAGAAAGCCGGTGCTTGGCAGATGTATGTGGAGCACTGCACTGTGATCATGAAATTAATTCCGGGTCAAAAAAATCAAAGTGCAATCCTGCTGCTGCAGCAAGAAATAAGCATATATGTGAGACCATAGCCGAGAGTTGTTTTCCAGTTAACGAGGGTCCTGCAGCGAGCCGGCTTCATGAATTCTTCTTGCATCAATTCTGCGATGCTCACAGCTGCATTGGACGTGGAAAGCCTTTCTCCAGAGGACGCAGGGATTCAGAAGTTCTGAAGAACGTACTTTGA
Protein sequence

>MsaT013847.1

MNKILVWFQRFVVFLLLTRISSLPHTDDDGHVDSDAARILDQEQSGDHQIHCSRERSRIAWKIVQEYLTTFVEKEKYNISRRCRLHPDNDIYRDQEQHKSHIDINEWQCGYCKKTFYEEKHLDQHFDNRHSNLLNLKESRCLADVCGALHCDHEINSGSKKSKCNPAAAARNKHICETIAESCFPVNEGPAASRLHEFFLHQFCDAHSCIGRGKPFSRGRRDSEVLKNVL*